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SARS-CoV-2 infection in immunosuppression evolves sub-lineages which independently accumulate neutralization escape mutations.
Lustig G, Ganga Y, Rodel HE, Tegally H, Khairallah A, Jackson L, Cele S, Khan K, Jule Z, Reedoy K, Karim F, Bernstein M, Ndung'u T, Moosa MS, Archary D, de Oliveira T, Lessells R, Neher RA, Abdool Karim SS, Sigal A. Lustig G, et al. Among authors: neher ra. Virus Evol. 2023 Dec 28;10(1):vead075. doi: 10.1093/ve/vead075. eCollection 2024. Virus Evol. 2023. PMID: 38361824 Free PMC article.
Multiplex qPCR discriminates variants of concern to enhance global surveillance of SARS-CoV-2.
Vogels CBF, Breban MI, Ott IM, Alpert T, Petrone ME, Watkins AE, Kalinich CC, Earnest R, Rothman JE, Goes de Jesus J, Morales Claro I, Magalhães Ferreira G, Crispim MAE; Brazil-UK CADDE Genomic Network; Singh L, Tegally H, Anyaneji UJ; Network for Genomic Surveillance in South Africa; Hodcroft EB, Mason CE, Khullar G, Metti J, Dudley JT, MacKay MJ, Nash M, Wang J, Liu C, Hui P, Murphy S, Neal C, Laszlo E, Landry ML, Muyombwe A, Downing R, Razeq J, de Oliveira T, Faria NR, Sabino EC, Neher RA, Fauver JR, Grubaugh ND. Vogels CBF, et al. Among authors: neher ra. PLoS Biol. 2021 May 7;19(5):e3001236. doi: 10.1371/journal.pbio.3001236. eCollection 2021 May. PLoS Biol. 2021. PMID: 33961632 Free PMC article.
Urgent need for a non-discriminatory and non-stigmatizing nomenclature for monkeypox virus.
Happi C, Adetifa I, Mbala P, Njouom R, Nakoune E, Happi A, Ndodo N, Ayansola O, Mboowa G, Bedford T, Neher RA, Roemer C, Hodcroft E, Tegally H, O'Toole Á, Rambaut A, Pybus O, Kraemer MUG, Wilkinson E, Isidro J, Borges V, Pinto M, Gomes JP, Freitas L, Resende PC, Lee RTC, Maurer-Stroh S, Baxter C, Lessells R, Ogwell AE, Kebede Y, Tessema SK, de Oliveira T. Happi C, et al. Among authors: neher ra. PLoS Biol. 2022 Aug 23;20(8):e3001769. doi: 10.1371/journal.pbio.3001769. eCollection 2022 Aug. PLoS Biol. 2022. PMID: 35998195 Free PMC article.
Evolution of the SARS-CoV-2 Mutational Spectrum.
Bloom JD, Beichman AC, Neher RA, Harris K. Bloom JD, et al. Among authors: neher ra. Mol Biol Evol. 2023 Apr 4;40(4):msad085. doi: 10.1093/molbev/msad085. Mol Biol Evol. 2023. PMID: 37039557 Free PMC article.
Fitness effects of mutations to SARS-CoV-2 proteins.
Bloom JD, Neher RA. Bloom JD, et al. Among authors: neher ra. Virus Evol. 2023 Sep 18;9(2):vead055. doi: 10.1093/ve/vead055. eCollection 2023. Virus Evol. 2023. PMID: 37727875 Free PMC article.
Evolution and neutralization escape of the SARS-CoV-2 BA.2.86 subvariant.
Khan K, Lustig G, Römer C, Reedoy K, Jule Z, Karim F, Ganga Y, Bernstein M, Baig Z, Jackson L, Mahlangu B, Mnguni A, Nzimande A, Stock N, Kekana D, Ntozini B, van Deventer C, Marshall T, Manickchund N, Gosnell BI, Lessells RJ, Karim QA, Abdool Karim SS, Moosa MS, de Oliveira T, von Gottberg A, Wolter N, Neher RA, Sigal A. Khan K, et al. Among authors: neher ra. Nat Commun. 2023 Dec 6;14(1):8078. doi: 10.1038/s41467-023-43703-3. Nat Commun. 2023. PMID: 38057313 Free PMC article.
TreeTime: Maximum-likelihood phylodynamic analysis.
Sagulenko P, Puller V, Neher RA. Sagulenko P, et al. Among authors: neher ra. Virus Evol. 2018 Jan 8;4(1):vex042. doi: 10.1093/ve/vex042. eCollection 2018 Jan. Virus Evol. 2018. PMID: 29340210 Free PMC article.
101 results